Resource
| Id | DNase-seq/ENCSR855FOP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR855FOP [biosample_summary="Homo sapiens hematopoietic multipotent progenitor cell treated with interleukin-3 for 13 days, kit ligand for 13 days, hydrocortisone succinate for 13 days, erythropoietin for 13 days"] |
| Description |
status: released biological_replicates: Rep 2 summary: male adult (25 years) treated with interleukin-3 for 13 days, kit ligand for 13 days, hydrocortisone succinate for 13 days, erythropoietin for 13 days output_type: peaks audit_error: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous to the commonly used fraction of reads in peaks metric. ENCODE processed alignment files {ENCFF401MDW|/files/ENCFF401MDW/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.23. According to ENCODE standards, SPOT1 score of 0.4 or higher is considered a product of high quality data. Any sample with a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample, and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) audit_error: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous to the commonly used fraction of reads in peaks metric. ENCODE processed alignment files {ENCFF741PWD|/files/ENCFF741PWD/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL001DNS|/pipelines/ENCPL001DNS/}) for GRCh38 assembly have a SPOT1 score of 0.18. According to ENCODE standards, SPOT1 score of 0.4 or higher is considered a product of high quality data. Any sample with a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample, and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) audit_internal_action: Archived analysis {ENCAN851ACE|/analyses/ENCAN851ACE/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR855FOP | float |
DNase-seq_ENCSR855FOP |
DNase-seq ENCSR855FOP [biosample_summary="Homo sapiens hematopoietic multipotent progenitor cell treated with interleukin-3 for 13 days, kit ligand for 13 days, hydrocortisone succinate for 13 days, erythropoietin for 13 days"]
|
 |
[6, 8.48e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15220415 | 0.47% | 101225 |
| chr1 | 1526954 | 0.61% | 10161 |
| chr2 | 1141665 | 0.47% | 7584 |
| chr3 | 929474 | 0.47% | 6186 |
| chr4 | 660036 | 0.35% | 4389 |
| chr5 | 757691 | 0.42% | 5040 |
| chr6 | 941873 | 0.55% | 6261 |
| chr7 | 729400 | 0.46% | 4847 |
| chr8 | 602009 | 0.41% | 4002 |
| chr9 | 639259 | 0.46% | 4253 |
| chr10 | 653684 | 0.49% | 4338 |
| chr11 | 787808 | 0.58% | 5247 |
| chr12 | 773991 | 0.58% | 5141 |
| chr13 | 343701 | 0.30% | 2289 |
| chr14 | 491152 | 0.46% | 3266 |
| chr15 | 488199 | 0.48% | 3246 |
| chr16 | 547889 | 0.61% | 3646 |
| chr17 | 749968 | 0.90% | 4989 |
| chr18 | 279516 | 0.35% | 1859 |
| chr19 | 701505 | 1.20% | 4667 |
| chr20 | 418660 | 0.65% | 2788 |
| chr21 | 170183 | 0.36% | 1134 |
| chr22 | 344757 | 0.68% | 2297 |
| chrX | 495591 | 0.32% | 3294 |
| chrY | 45450 | 0.08% | 301 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 101225 | 1 | 450 | 150.36 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF841LEO.bed.gz | 1007.75 KB | 84e5c7c48a2f1008adabd008106c9b83 |
| ENCFF841LEO.tabix.bed.gz | 868.66 KB | b7f663139c577accf2d7493ec84ee6c9 |
| ENCFF841LEO.tabix.bed.gz.tbi | 358.75 KB | 16e6a05a699cb94da6017dba13ffd819 |
| genomic_resource.yaml | 3.67 KB | 88aba26a8cd1826d4a0670e647cb5803 |
| statistics/ |